Results 41 to 50 of about 14,400 (274)
PLoS Computational Biology, 2021 The coronavirus causing the COVID-19 pandemic, SARS-CoV-2, uses -1 programmed ribosomal frameshifting (-1 PRF) to control the relative expression of viral proteins. As modulating -1 PRF can inhibit viral replication, the RNA pseudoknot stimulating -1 PRF
Sara Ibrahim Omar +5 more
doaj +1 more source
Structural Alignment of Pseudoknotted RNA [PDF]
Journal of Computational Biology, 2006 In this paper, we address the problem of discovering novel non-coding RNA (ncRNA) using primary sequence, and secondary structure conservation, focusing on ncRNA families with pseudoknotted structures. Our main technical result is an efficient algorithm for computing an optimum structural alignment of an RNA sequence against a genomic substring.
Han, Buhm +3 more
openaire +6 more sources
Shapes of RNA Pseudoknot Structures [PDF]
Journal of Computational Biology, 2010 24 pages, 7 figures,
Christian M. Reidys, Rita R. Wang
openaire +4 more sources
PLoS Computational Biology, 2023 Coronaviruses (CoVs) use -1 programmed ribosomal frameshifting stimulated by RNA pseudoknots in the viral genome to control expression of enzymes essential for replication, making CoV pseudoknots a promising target for anti-coronaviral drugs.
Rohith Vedhthaanth Sekar +2 more
doaj +1 more source
Comparative Analysis of Novel Strains of Porcine Astrovirus Type 3 in the USA
Viruses, 2021 Porcine astrovirus type 3 (PoAstV3) has been previously identified as a cause of polioencephalomyelitis in swine and continues to cause disease in the US swine industry. Herein, we describe the characterization of both untranslated regions, frameshifting
Franco Matias Ferreyra +12 more
doaj +1 more source
ATTfold: RNA Secondary Structure Prediction With Pseudoknots Based on Attention Mechanism
Frontiers in Genetics, 2020 Accurate RNA secondary structure information is the cornerstone of gene function research and RNA tertiary structure prediction. However, most traditional RNA secondary structure prediction algorithms are based on the dynamic programming (DP) algorithm ...
Yili Wang +14 more
doaj +1 more source
The 3' splice site of influenza A segment 7 mRNA can exist in two conformations: a pseudoknot and a hairpin. [PDF]
PLoS ONE, 2012 The 3' splice site of influenza A segment 7 is used to produce mRNA for the M2 ion-channel protein, which is critical to the formation of viable influenza virions.
Walter N Moss +5 more
doaj +1 more source
Abstract P-27: The 30S Ribosomal Subunit Assembly Factor Rbfa Plays a Key Role in the Formation of the Central Pseudoknot and in the Correct Docking of Helix 44 of the Decoding Center [PDF]
International Journal of Biomedicine, 2021 Background: Ribosome biogenesis is a complicated multi-stage process. In the cell, 30S ribosomal subunit assembly is fast and efficient, proceeding with the help of numerous assembly protein factors.
Elena M. Maksimova +7 more
doaj +1 more source
Current Opinion in Structural Biology, 1992 RNA pseudoknots result from Watson-Crick base pairing involving a stretch of bases located between paired strands and a distal single-stranded region. Recently, significant advances in our understanding of their structural and functional aspects have been accomplished.
Westhof, Eric, Jaeger, Luc
openaire +1 more source
RNA pseudoknots: folding and finding [PDF]
F1000 Biology Reports, 2010 RNA pseudoknots are important for function. Three-dimensional structural information is available, insights into factors affecting pseudoknot stability are being reported, and computer programs are available for predicting pseudoknots.
David H. Mathews +2 more
openaire +3 more sources